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bedtools: a powerful toolset for genome arithmetic¶ Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. For example, bedtools allows one to intersect, merge, count, complement, and shuffle genomic intervals from multiple files in widely-used genomic
Lincoln Stein has written a bunch of modules to deal with SAM/BAM files. Check out the CPAN module. If you are having trouble installing Bio::DB::Sam, you may have to recompile SAMTools with the following command: make CXXFLAGS=-fPIC CFLAGS=-fPIC CPPFLAGS=-fPIC To install the Perl module on a machine where you don't have root access, follow these instructions. Using this module, I recreated the al
Manual & tutorial Japanese Tutorial (FAQ) English manual (FAQ) DBCLS togotv Tutorial video 1 (JP) - Reference Genome Mapping DBCLS togotv Tutorial video 2 (JP) - De novo Assembly Tutorial : How to upload and register query files to DDBJ Pipeline (JP) Tutorial : How to run HGAP for PacBio sequence read on DDBJ Pipeline (JP) Data submission for analyzed results and sequenced data DRA : NGS raw seque
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